RT Journal Article
SR Electronic
T1 Pangenomics provides insights into the role of synanthropy in barn swallow evolution
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2022.03.28.486082
DO 10.1101/2022.03.28.486082
A1 Simona Secomandi
A1 Guido Roberto Gallo
A1 Marcella Sozzoni
A1 Alessio Iannucci
A1 Elena Galati
A1 Linelle Abueg
A1 Jennifer Balacco
A1 Manuela Caprioli
A1 William Chow
A1 Claudio Ciofi
A1 Joanna Collins
A1 Olivier Fedrigo
A1 Luca Ferretti
A1 Arkarachai Fungtammasan
A1 Bettina Haase
A1 Kerstin Howe
A1 Woori Kwak
A1 Gianluca Lombardo
A1 Patrick Masterson
A1 Graziella Messina
A1 Anders Pape Møller
A1 Jacquelyn Mountcastle
A1 Timothy A. Mousseau
A1 Joan Ferrer-Obiol
A1 Anna Olivieri
A1 Arang Rhie
A1 Diego Rubolini
A1 Marielle Saclier
A1 Roscoe Stanyon
A1 David Stucki
A1 Françoise Thibaud-Nissen
A1 James Torrance
A1 Antonio Torroni
A1 Kristina Weber
A1 Roberto Ambrosini
A1 Andrea Bonisoli-Alquati
A1 Erich D. Jarvis
A1 Luca Gianfranceschi
A1 Giulio Formenti
YR 2022
UL http://biorxiv.org/content/early/2022/03/29/2022.03.28.486082.abstract
AB Insights into the evolution of non-model organisms are often limited by the lack of reference genomes. As part of the Vertebrate Genomes Project, we present a new reference genome and a pangenome produced with High-Fidelity long reads for the barn swallow Hirundo rustica. We then generated a reference-free multialignment with other bird genomes to identify genes under selection. Conservation analyses pointed at genes enriched for transcriptional regulation and neurodevelopment. The most conserved gene is CAMK2N2, with a potential role in fear memory formation. In addition, using all publicly available data, we generated a comprehensive catalogue of genetic markers. Genome-wide linkage disequilibrium scans identified potential selection signatures at multiple loci. The top candidate region comprises several genes and includes BDNF, a gene involved in stress response, fear memory formation, and tameness. We propose that the strict association with humans in this species is linked with the evolution of pathways typically under selection in domesticated taxa.Competing Interest StatementDavid Stucki and Kristina Weber are full-time employees at Pacific Biosciences, a company commercialising single-molecule sequencing technologies.